TCR sequence to its targets

Question

[colonppg]

Dear Biostar community:

Quick question... I have in my hand a TCR dataset from Adaptivebiotech. I am new to this field so need your kind inputs:

1. I used R to read and combined the raw data file from adaptive into a single object
2. I can then check total unique reads per sample, or total reads per sample
3. Graphing based on clinical response, etc...

I wonder if there are other things I can do in addition to what I have already done, I would like to test if there are ways that can tell me the targets of the TCR...

any suggestions for R packages for TCR analysis?

Thanks
colon

Answer 1

[tim]

Hi, I hope you are doing great. If you still need help with your problem, maybe this can help. ImmuneWatch has developed a bioinformatics tool called ImmuneWatch DETECT to annotate the epitope specificity of your T-cell receptor sequences. Maybe this could be a solution for you? Disclosure, I am working on the product. 

immunewatch.com/detect-early-access-program/